Pulldown and mass spectroscopic analysis.

<p>Elution sample from Panc 8 (A) and Panc 15 (C) were run on SDS/PAGE then stained with coomassie. Sequence of pyruvate kinase M2 (B) and Annexin A2 (D), with peptides recovered from tryptic digest of the band from (A) and (C) in red.</p

Validation of affinity partner for phage clones.

<p>A) Western blot of the protein that binds to clone 8, probed using anti-pyruvate kinase M2 antibody. B) ELISA of clone 8 incubated with purified pyruvate kinase M2, or with BSA or recombinant annexin A2 as negative controls. C) Western blot of cell fractionation using anti-pyruvate kinase M2 antibody D) ELISA on intact, non-permeabilized L3.6pl cells with anti-pyruvate kinase M2 antibody. E) Western blot of clone 15 associated protein probed with anti annexin A2 antibody. E) ELISA showing binding of clone 15 to annexin A2 protein. F) Western blot of cell fractionation using anti annexin A2 antibody. G) ELISA on intact, non-permeabilized L3.6pl cells with anti-Annexin A2 antibody.</p

Tissue microarray data.

<p>Values are pathologist's scoring of number of cells stained (0–3) and intensity of staining (0–3) multiplied together. A) Representative tumor section stained for plectin. Note the membrane staining. B) Pathologist's scoring of human cancer biopsy specimens stained for plectin. C) Representative PDAC tumor biopsy section stained for pyruvate kinase M2. D) Pathologist's scoring of pyruvate kinase M2 stained human cancer biopsy tissue sections.</p

Listing of the phage clones, their binding peptide sequence, and their associated targeted protein.

<p>Listing of the phage clones, their binding peptide sequence, and their associated targeted protein.</p

Prediction performance of COXEN predictors.

<p>The overall predictability (AUC) of identical COXEN predictors are summarized on the Dressman-119 and UVA-55 cohorts by AUC values with their 95% CIs and p-values. Cutoff values of COXEN predictors were derived by maximizing NPVs on the Dressman-119 cohort. Sensitivity, specificity, PPV, and NPV values were evaluated on both Dresseman-119 and independent UVA-55 cohort.</p

COXEN Biomarkers and Gene Networks for Carboplatin.

<p>Clustering heatmap analysis with major gene networks with x-axis responder (red) and non-responder (green) patients and y-axis Immunological disease/cell death entwork (red), Cell cycle/Connective tissue disorders/Inflammator disease network (green), Cellular movement/Hematological system/Immune cell trafficking network (yellow), and Free radical scavenging/cellular movement/cancer/cellular growth and proliferation network (blue).</p

Clinical Characteristics of the UVA-55 Cohort.

<p>CR = Complete Response, PR = Partial Response, PD = Progressive Disease, PFS = Progression Free Survival, OS = Overall Survival, CI = Confidence Interval.</p

Cell and patient data sets used for COXEN Predictor Training and Testing.

<p>NCI-60 and Peter-18 cell-line data sets were used to discover chemosensitivity biomarkers and to train multivariate statistical prediction models for paclitaxel and carboplatin, respectively. Bonome-185 set was used to select the biomarkers with the consistent directions of differential expression. Dressman-119 set was used to independently evaluate the trained predictors and to derive the optimal cutoff value of each predictor. UVA-55 set was purely used to test the predictability of the COXEN predictors in a prospective manner.</p

TGF-β expression data.

<p>TGF-β expression levels were not significantly different in healthy controls, CD patients, and EE patients (Ctl mean±SD = 162.7±66.3 pg/mL, CD = 190.4±87.8 pg/mL, EE = 193.9±180.4 pg/mL, p-value = 0.793).</p

Immunohistochemical staining of duodenal biopsies from EE subjects for SMAD proteins.

<p>A) Representative immunohistochemical (IHC) photomicrographs at 100x and 400x from an EE duodenal biopsy showing SMAD7 staining in <u>both</u> the epithelium (arrows) and lamina propria (arrowheads). B) Representative IHC photomicrographs at 100x and 400x from an EE duodenal biopsy showing p-SMAD3 staining in <u>only</u> the epithelium (arrows).</p